Understanding gene sequence variation in the context of transcription regulation in yeast.

ABSTRACT: DNA sequence polymorphism in a regulatory protein can have a widespread transcriptional effect. Here we present a computational approach for analyzing modules of genes with a common regulation that are affected by specific DNA polymorphisms. We identify such regulatory-linkage modules by integrating genotypic and expression data for individuals in a segregating population with complementary expression data of strains mutated in a variety of regulatory proteins. Our procedure searches simultaneously for groups of co-expressed genes, for their common underlying linkage interval, and for their shared regulatory proteins. We applied the method to a cross between laboratory and wild strains of S. cerevisiae, demonstrating its ability to correctly suggest modules and to outperform extant approac

SUBMITTER: Gat-Viks I 

PROVIDER: S-EPMC2794365 | biostudies-literature | 2010 Jan

REPOSITORIES: biostudies-literature